Genetic determinants of resistance of hospital-associated strains of Klebsiella pneumoniae to β-lactam antibiotics isolated in neonates

Дубоделов, Д. В.; Lubasovskaya, L. A.; Shubina, Jekaterina; Mukosey, I. S.; Korostin, Dmitriy; Kochetkova, Taisiya O.; Bogacheva, N. A.; Bistritskiy, A. A.; Gordeev, A. B.; Trofimov, Trofimov D.Yu.; Priputnevich, Tatiana V.; Zubkov, Zubkov V.V.

doi:10.1134/s1022795416090040

Cited by 5 publications

(3 citation statements)

References 5 publications

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“…Finally, 128 articles at the time of writing, none of which were preprints, were analyzed ( S1 Dataset ). The 128 articles comprised a total study population of 127,583 neonates in 30 countries of Africa ( n = 10; Algeria [ 27 ], Egypt [ 28 , 29 ], Ghana [ 30 ], Guinea [ 31 ], Morocco [ 32 , 33 ], Nigeria [ 34 – 37 ], South Africa [ 38 – 45 ], Tanzania [ 46 ], Tunisia [ 47 ], and Zambia [ 48 ]), Asia ( n = 10; Bangladesh [ 34 , 49 ], China [ 50 – 92 ], India [ 34 , 93 – 113 ], Iran [ 114 ], Israel [ 115 ], Japan [ 116 ], Nepal [ 117 ], Pakistan [ 34 , 118 – 122 ], Saudi Arabia [ 123 , 124 ], and Vietnam [ 125 – 128 ]), Europe ( n = 8; France [ 129 ], Greece [ 130 ], Hungary [ 131 ], Italy [ 132 – 142 ], Portugal [ 143 ], Russia [ 144 ], Turkey [ 145 – 147 ], and the United Kingdom [ 148 ]), and South America (Colombia [ 149 – 152 ] and Venezuela [ 153 ]) ( Fig 2 ). Among the ...…”

Section: Resultsmentioning

confidence: 99%

Prevalence and clonal diversity of carbapenem-resistant Klebsiella pneumoniae causing neonatal infections: A systematic review of 128 articles across 30 countries

Yang

Feng

et al. 2023

PLoS Med

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Background Klebsiella pneumoniae is the most common pathogen causing neonatal infections, leading to high mortality worldwide. Along with increasing antimicrobial use in neonates, carbapenem-resistant K. pneumoniae (CRKP) has emerged as a severe challenge for infection control and treatment. However, no comprehensive systematic review is available to describe the global epidemiology of neonatal CRKP infections. We therefore performed a systematic review of available data worldwide and combined a genome-based analysis to address the prevalence, clonal diversity, and carbapenem resistance genes of CRKP causing neonatal infections. Methods and findings We performed a systematic review of studies reporting population-based neonatal infections caused by CRKP in combination with a genome-based analysis of all publicly available CRKP genomes with neonatal origins. We searched multiple databases (PubMed, Web of Science, Embase, Ovid MEDLINE, Cochrane, bioRxiv, and medRxiv) to identify studies that have reported data of neonatal CRKP infections up to June 30, 2022. We included studies addressing the prevalence of CRKP infections and colonization in neonates but excluded studies lacking the numbers of neonates, the geographical location, or independent data on Klebsiella or CRKP isolates. We used narrative synthesis for pooling data with JMP statistical software. We identified 8,558 articles and excluding those that did not meet inclusion criteria. We included 128 studies, none of which were preprints, comprising 127,583 neonates in 30 countries including 21 low- and middle-income countries (LMICs) for analysis. We found that bloodstream infection is the most common infection type in reported data. We estimated that the pooled global prevalence of CRKP infections in hospitalized neonates was 0.3% (95% confidence interval [CI], 0.2% to 0.3%). Based on 21 studies reporting patient outcomes, we found that the pooled mortality of neonatal CRKP infections was 22.9% (95% CI, 13.0% to 32.9%). A total of 535 neonatal CRKP genomes were identified from GenBank including Sequence Read Archive, of which 204 were not linked to any publications. We incorporated the 204 genomes with a literature review for understanding the species distribution, clonal diversity, and carbapenemase types. We identified 146 sequence types (STs) for neonatal CRKP strains and found that ST17, ST11, and ST15 were the 3 most common lineages. In particular, ST17 CRKP has been seen in neonates in 8 countries across 4 continents. The vast majority (75.3%) of the 1,592 neonatal CRKP strains available for analyzing carbapenemase have genes encoding metallo-β-lactamases and NDM (New Delhi metallo-β-lactamase) appeared to be the most common carbapenemase (64.3%). The main limitation of this study is the absence or scarcity of data from North America, South America, and Oceania. Conclusions CRKP contributes to a considerable number of neonatal infections and leads to significant neonatal mortality. Neonatal CRKP strains are highly diverse, while ST17 is globally prevalent and merits early detection for treatment and prevention. The dominance of blaNDM carbapenemase genes imposes challenges on therapeutic options in neonates and supports the continued inhibitor-related drug discovery.

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Section: Resultsmentioning

confidence: 99%

Prevalence and clonal diversity of carbapenem-resistant Klebsiella pneumoniae causing neonatal infections: A systematic review of 128 articles across 30 countries

Yang

Feng

et al. 2023

PLoS Med

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“…Для АМТ у данного пациента применялись следующие режимы: антисинегнойные цефалоспорины 3-4 поколения (цефтазидим 200 мг/кг/сут, или цефепим 150-200 мг/кг/сут или цефоперазон 160 мг/кг/сут) в сочетании с аминогликозидами (амикацин 20-25 мг/кг/сут в 1-2 введения или тобрамицин 10 мг/кг/сут), или карбапенемы (меропенем 4-6 г/сут) в сочетании с упомянутыми выше аминогликозидами. [7,8]. Первичная аннотация была проведена с помощью программ RAST (http://rast.nmpdr.org).…”

Section: материалы и методыunclassified

Epidemiological significance of genome variations in Pseudomonas aeruginosa causing chronic lung infection in patients with cystic fibrosis

Shaginyan

Avetisyan

Chernukha

et al. 2019

CMAC

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Objective. To present the data on the main mechanism of molecular variation in P. aeruginosa causing chronic lung infection in patients with cystic fibrosis. Materials and Methods. A total of 1800 throat swabs and sputum samples from cystic fibrosis patients were included in the study over the 10-year period. P. aeruginosa isolates were primarily identified by the biochemical method using the API 20NE test strips (bioMerieux, France). Antimicrobial susceptibility testing was performed by disc diffusion method. Genotyping was conducted by RAPD-PCR and MLST. Whole genome sequencing of three typical P. aeruginosa isolates was performed on an Ion PGM Torrent platform with Ion Sequencing Kit and 316v1 chips (Life Technologies Thermo Fisher, US) according to the manufacturer’s protocol. The RAST web application was used for initial annotation. Results. There were three main variants of the pathogen variability found: population heterogeneity, pathogen microevolution, and replacement by another genotype of the same species. The variation of the pathogen’s genome is due to the acquisition of mobile genetic elements (plasmids), mutations in the chromosomal genes responsible for antibiotic resistance, bacterial viability and survival during persistence in a host, and changes in the prophage regions of the pathogen. Conclusions. Epidemiological significance of the molecular mechanisms of pathogen variation is primarily due to the ability of strains to form epidemiologically significant clone. This requires control measures aimed to limit emergence and distribution of such clones to be developed.

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“…The research and monitoring of K. pneumoniae strains are key research trends both in Russia, and abroad [9][10][11][12][13]. Recently, one of accurate methods to identify microorganisms is MALDI-TOF mass-spectrometry [14], some foreign researchers suggest using the technique to screen the strains carrying carbapenemase bla KPC (K. pneumoniae carbapenemase -KPC), it is recorded in mass-spectrum as a peak of 11.109 Da.…”

Section: Introductionmentioning

confidence: 99%

Current Molecular Genetic Technologies to Study Hospital Strains

Belova¹,

Точилина²,

Kovalishena³

et al. 2019

Sovrem Tehnol Med

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The aim of the study was to assess the efficiency of a complex of molecular genetic techniques: PCR, RAPD, and MLST using MALDI-TOF mass-spectrometry to study the characteristics of hospital strains. Materials and Methods. We identified 23 strains of K. рneumoniae isolated in a pediatric hospital using MALDI-TOF massspectrometer Autoflex and MALDI Biotyper software (Bruker Daltonics, Germany). Antibiotic sensitivity was analyzed by means of an automatic bacteriological analyzer Phoenix-100 (Becton Dickinson, USA) using chromogenic culture media (HiMedia, India). The search for resistance determinants and molecular typing were performed using PCR, RAPD, and MLST. Results. All the strains were identified as K. pneumoniae ssp. pneumoniae. According to antibiotic sensitivity, three groups were distinguished: group 1 (n=15)-sensitive strains (wt); group 2 (n=7)-potential carbapenemase-producers; group 3 (n=1)-extendedspectrum beta-lactamase producers. No resistance determinants were found in groups 1 and 2; beta-lactamases bla SHV and bla CTX-M were revealed in group 3 strain. We identified RAPD-type of the strain, a capsule type (K-23), it belonging to the sequence type 17. Strains with this sequence type are rarely isolated in Russia, however, they are known in Europe, USA, and Asian countries, they being associated with lethal human pathologies and a high epidemic potential. Conclusion. The use of a complex of current techniques to study the phenotypic and genotypic properties of microorganisms enabled to isolate and characterize a hospital strain K. pneumoniae, which is antibiotic-resistant due to the presence of beta-lactamases: bla CTX-M-15 and bla SHV-11 , and it being dangerous in terms of resistance determinants transmission.

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Genetic determinants of resistance of hospital-associated strains of Klebsiella pneumoniae to β-lactam antibiotics isolated in neonates

Cited by 5 publications

References 5 publications

Prevalence and clonal diversity of carbapenem-resistant Klebsiella pneumoniae causing neonatal infections: A systematic review of 128 articles across 30 countries

Prevalence and clonal diversity of carbapenem-resistant Klebsiella pneumoniae causing neonatal infections: A systematic review of 128 articles across 30 countries

Epidemiological significance of genome variations in Pseudomonas aeruginosa causing chronic lung infection in patients with cystic fibrosis

Current Molecular Genetic Technologies to Study Hospital Strains

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